Structure of PDB 8ppk Chain U Binding Site BS01

Receptor Information
>8ppk Chain U (length=101) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
IHRIRITLTSRNVKSLEKVCADLIRGAKEKNLKVKGPVRMPTKTLRITTR
KTPCGEGSKTWDRFQMRIHKRLIDLHSPSEIVKQITSISIEPGVEVEVTI
A
Ligand information
>8ppk Chain 2 (length=1771) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucguacuuggauaacugugguaa
uucuagagcuaauacaugccgacgggcgcugacccccuucgcggggggga
ugcgugcauuuaucagaucaaaaccaacccggugccggcggcuuugguga
cucuagauaaccucgggccgaucgcacgccccccguggcggcgacgaccc
auucgaacgucugcccuaucaacuuucgaugguagucgccgugccuacca
uggugaccacgggugacggggaaucaggguucgauuccggagagggagcc
ugagaaacggcuaccacauccaaggaaggcagcaggcgcgcaaauuaccc
acucccgacccggggagguagugacgaaaaauaacaauacaggacucuuu
cgaggcccuguaauuggaaugaguccacuuuaaauccuuuaacgaggauc
cauuggagggcaagucuggugccagcagccgcgguaauuccagcuccaau
agcguauauuaaaguugcugcaguuaaaaagcucguaguuggaucuuggg
agcgggcggccguccccgccccgccucucggcgccccggggcccgaagcg
uuuacuuugaaaaaauuagaguguucaaagcaggcccgagccgccuggau
accgcagcuaggaauaauggaauaggaccgcgguucuauuuuguugguuu
ucggaacugaggccaugauuaagagggacggccgggggcauucguauugc
gccgcuagaggugaaauucuuggaccggcgcaagacggaccagagcgaaa
gcauuugccaagaauguuuucauuaaucaagaacgaaagucggagguucg
aagacgaucagauaccgucguaguuccgaccauaaacgaugccgaccggc
gaugcggcggcguuauucccaugacccgccgggcagcuuccgggaaacca
aagucuuuggguuccggggggaguaugguugcaaagcugaaacuuaaagg
aauugacggaagggcaccaccaggaguggagccugcggcuuaauuugacu
caacacgggaaaccucacccggcccggacacggacaggauugacagauug
auagcucuuucucgauuccgugggugguggugcauggccguucuuaguug
guggagcgauuugucugguuaauuccgauaacgaacgagacucuggcaug
cuaacuaguuacgcgacccccgagcggucggcgucccccaacuucuuaga
gggacaaguggcguucagccacccgagauugagcaauaacaggucuguga
ugcccuuagauguccggggcugcacgcgcgcuacacugacuggcucagcg
ugugccuacccuacgccggcaggcgcggguaacccguugaaccccauucg
ugauggggaucggggauugcaauuauuccccaugaacgaggaauucccag
uaagugcgggucauaagcuugcguugauuaagucccugcccuuuguacac
accgcccgucgcuacuaccgauuggaugguuuagugaggcccucggaucg
gccccgccggggucggcccacggcccuggcggagcgcugagaagacgguc
gaacuugacuaucuagaggaaguaaaagucguaacaagguuuccguaggu
gaaccugcggaaggaucauua
...<<<<<...[[[[>>>>>[[[.((((((.....{{.........[[[.
[[[..<<....<<....<<..........>>...>>.>>......{{...
.....[[[......{{....[[[{..........<<.....<<.<<<...
..>>>.>>......>>.........<<<<...<<<<<<....>>>>>>..
.>>>>[[..(((((.....<<<<<<<<<<<<<..>>>>.......<....
..>..)))))......]]...<<<<.<<<<......>>>>>>>>..}.]]
]...}}....]]].<<<....<<<....<<<<<<<.........>>>>>>
>>>>......>>>...<<<.<<<<....>>>>....>>>.}}.<<.<<<.
.........>>>.>>.<.<<....>>.>...]]]]]].........<<<.
...<<<<...>>>>..>>>......}}.......<<<<<<<<<.<<<...
.>>>..>>>>>>.>>>......<<..<...........>..>>.......
..<<<<<((......<<<<.....<<..))>>.......>>>>.>>>>>.
.)))))).]]]............{{.......{{...[[[.[[....<<<
.<.<<<<<..>>>>>.>.>>>.<<...<<<..<<<<<>>>>>.>>>.>>.
.<<<<<<.<.......<<...<.......>.<<<<.......>>>>...>
>......>.>>>..>>>........{.[[.(((((((.....>>>>>>>>
>.))))))).]].}....]]....<<<<<<..<...<<<<..<<..<<<<
<<<<...<<<......>>>......>>>>>>>>..>>.......<<....
>>...>>>>..>..>>>.>>>...]]]...}}......<<<<<<<...<.
..<<<<.<.....>.>>>>...>>>>>>>>..........<<<.<<.<<<
..<.<<<<<<.<<<<<....>>>>>>>>>>>.>..>>>...<<..}}>>.
..>>.....>>>.....<<<......<<<<....>>>>....>>>..]]]
]..<<<<<.<<<<<<<..<<..<<<<<..<<<.<<<<........<<...
.....>>..........<<<<<......<<<<<<.......<<.<<<...
.....>>>.>>.....>>>>>>.<.<<.<<<..<<.<<<<<<....<<<.
<<<<<....>>>...<<<......>>>...>>.>>>....<<<...<...
<<<<..<<<<<<<<<<<<.......>>>>.>>>>.....>>>>..>>>>.
.>.....<<<<<.....>>>>>........>>>....>>>.>>>.....>
>>>>>>>......>>>>>......>>>>.>>>.....<<.<<<.......
.<.......<<<.<<<<....>>>>.>>>....>.........>>>.>>.
...........<<<<<..........>>>>>...........>>>>>...
..<<<<<<<<.......>>>>>>>>......>>...>>>>>>>>>>.>>.
......<<.<..<<<<.<<....<<<<<<<<.<<<..<<<<.<<...<<<
<<.<<<<<<<<<<<<.....>>>>>>>>>>>>...>>>>>...>>.>>>>
..>>>.>>>>>>>>...>>.>>>>...>.>>.........<<<<<<<<<.
...>>>>>>>>>.........
Receptor-Ligand Complex Structure
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PDB8ppk Universal features of Nsp1-mediated translational shutdown by coronaviruses.
Resolution2.98 Å
Binding residue
(original residue number in PDB)		R19 R21 V29 K51 G52 V54 R55 M56 P57 T58 K59 R66 K67 T68 P69 C70 G71 E72 S74 K75 T76 W77 R79 R83 H85 K86 R87 L88
Binding residue
(residue number reindexed from 1)		R3 R5 V13 K35 G36 V38 R39 M40 P41 T42 K43 R50 K51 T52 P53 C54 G55 E56 S58 K59 T60 W61 R63 R67 H69 K70 R71 L72
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0097371 MDM2/MDM4 family protein binding
GO:1990948 ubiquitin ligase inhibitor activity
Biological Process
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:1901798 positive regulation of signal transduction by p53 class mediator
Cellular Component
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0015935 small ribosomal subunit
GO:0016020 membrane
GO:0022626 cytosolic ribosome
GO:0022627 cytosolic small ribosomal subunit
GO:0045202 synapse
GO:0070062 extracellular exosome
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8ppk, PDBe:8ppk, PDBj:8ppk
PDBsum8ppk
PubMed37802027
UniProtP60866|RS20_HUMAN Small ribosomal subunit protein uS10 (Gene Name=RPS20)

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